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Nature Methods|December 3, 2025
Atom-level enzyme active site scaffolding using RFdiffusion2Woody Ahern, Jason Yim, Doug Tischer, et al.Nature Methods|December 8, 2025
CellSAM: a foundation model for cell segmentationMarkus Marks, Uriah Israel, Rohit Dilip, et al.Nature Methods|November 29, 2025
DeepCor: denoising fMRI data with contrastive autoencodersYu Zhu, Aidas Aglinskas, Stefano AnzellottiNature Methods|December 16, 2025
Systematic scRNA-seq screens profile neural organoid response to morphogensFátima Sanchís-Calleja, Nadezhda Azbukina, Akanksha Jain, et al.Nature Methods|December 4, 2025
C-COMPASS: a user-friendly neural network tool profiles cell compartments at protein and lipid levelsDaniel T Haas, Daniel Weindl, Pamela Kakimoto, et al.Nature Methods|December 4, 2025
Deep Imputation for Skeleton data (DISK) for behavioral scienceFrance Rose, Monika Michaluk, Timon Blindauer, et al.Nature Methods|November 29, 2025
ExoSloNano: multimodal nanogold labels for identification of macromolecules in live cells and cryo-electron tomogramsLindsey N Young, Alice Sherrard, Huabin Zhou, et al.Nature Methods|December 2, 2025
Molecular-scale isotropic 3D super-resolution microscopy via interference localizationShihang Luo, Xian'ao Zhao, Yuanyuan Li, et al.Nature Methods|November 27, 2025
A comprehensive foundation model for cryo-EM image processingYang Yan, Shiqi Fan, Fajie Yuan, et al.Nature Methods|November 13, 2025
MISO: microfluidic protein isolation enables single-particle cryo-EM structure determination from a single cell colonyGangadhar Eluru, Steven De Gieter, Stephan Schenck, et al.Pageof 342